BDGP Gold cDNA Collection

The BDGP Gold Collection is a subset of the Drosophila Gene Collection
(DGC). This collection is the most highly validated set of cDNAs
available.It contains over 8,000 clones that are full length according
to the annotation of the gene. We have received these clones "as is"
from the BDGP.

There may be GOLD clones listed on BDGP's website that the DGRC
does not have. It is our understanding that these plates will
eventually be sent to us.

Orders from the BDGP Gold Collection are currently shipped
approximately 7 - 14 days after the date the order was first
placed. If you order more than five (5) clones at a time, your
shipment will be further delayed.

BDGP DGC Release 1, 2 & 3

The BDGP Drosophila Gene Collection Releases 1, 2 and 3 comprise clones drawn
from the EST collection that have undergone further analysis by the
BDGP, identifying them as potential full length clones (Rubin et al., 2000; Stapleton et al., 2002). These
analyses include:

5' ends resequenced;

3' ends resequenced;

clones sized; and

clones checked for polyadenylation.

We have received these clones "as is" from the BDGP.

Orders from the DGC collection are currently shipped approximately
7 - 14 days after the date the order was first placed. If you order
more than five (5) clones at a time, your shipment will be further
delayed.

BDGP EST Collection

The BDGP EST Collection comprises cDNAs from a number of different
libraries described in detail at
BDGP (Rubin et al., 2000; Stapleton et al., 2002). These clones
have not been fully characterized and many may exist for a single
gene. These clones may or may not be full length, and may or may not
be redundant in sequence.

We have received these clones "as is" from the BDGP.

If your clone of interest is in the EST Collection, but marked "unavailable", it is likely a clone that BDGP did not send us and according to BDGP, the plate no longer exists. To our knowledge, there are no other sources for these ESTS.

Orders from the EST collection are currently shipped approximately 7 - 14 days after the date the order was first placed. If you order more than five (5) clones at a time, your shipment will be further delayed.

BDGP ORF Collection

This collection contains proteomic clones from BDGP. BDGP is
transferring 6,500 high-quality ORFs into the BD Clonetech In-Fusion
system. The ORFs originate from clones in the Gold
Collection. These clones are being sent to the DGRC in subsets as
they are completed, rearrayed and verified.

Two clones of each ORF exist, one contains the native stop codon
and is referred to as ExpressR-NativeStop(NS) clone and one lacks the
stop codon and is referred to as theExpressR-Open(O) clone. The NS
and O forms of the clones will allow one to create amino-terminal or
carboxy-terminal fusion proteins, respectively. For more information
on how this collection is being made, go to the
BDGP
Universal Proteomics Resources page.

BDGP Tagged ORF Collection

This is a collection of expression-ready ORFs that have been tagged. This BDGP collection is still growing. Anything listed as "unavailable" means that we have not received it from BDGP yet.
A complete list of what is expected to be available in the future can be found here.

There are three categories of tagged ORFS:

UFO - ORFs driven by a UAS promoter and with a Flag-HA tag C-terminal fusion

MXO - ORFs driven by a metallothionein promoter with TAP-tag for C-terminal fusion

BDGP iPCR Collection

The BDGP iPCR Collection contains cDNA clones generated by BDGP using a
screening method called SLIP (Self-Ligation of Inverse PCR Products).
This method is utilized to recover full-length cDNAs for relatively
rare and alternatively spliced transcripts of interest. To date, this
collection contains 981 genes not previously represented in the EST or
DGC collections (Hoskins et al., 2005).

Orders from the BDGP iPCR collection are currently shipped
approximately 7 - 14 days after the date the order was first
placed. If you order more than five (5) clones at a time, your
shipment will be further delayed.

Testis cDNA Collection

This collection is comprised of cDNAs from a library generated from
testis, vas deferens, and portions of the ejaculatory apparatus and
accessory glands (Andrews et. al., 2000).

Orders from the BDGP iPCR collection are currently shipped
approximately 7 - 14 days after the date the order was first
placed. If you order more than five (5) clones at a time, your
shipment will be further delayed.

Search Tips: Clone ID can be retrieved from
GenBank (search GenBank by your gene name or CG number). All testes
cDNA clones from this collection begin with the letters "bs" and are
followed by two numbers, one letter, two numbers.

CuraGen Yeast 2-Hybrid Collection

CuraGen Corporation, in collaboration with researchers at the Johns Hopkins
University, Wayne State University School of Medicine and Yale University
School of Medicine, completed the first comprehensive protein interaction
map for a multicellular organism, Drosophila melanogaster, and
published the results in the
online edition
and the December 5, 2003 print edition of Science.

The research used the yeast two-hybrid protocol in a high-throughput mode to capture a
significant fraction of the organism's protein-protein interaction.

CuraGen Materials available through the DGRC

The following CuraGen materials are available through the DGRC:

10,787 AD clones in CuraGen yeast line N106r

10,623 BD clones in CuraGen yeast lines YULH

Both the AD and BD clones have been QC'ed by sizing and sequencing in the 5' direction.

The vectors used to make these clones were pBD-Gal4 CAM ("BD" from Stratagene) and pAct2 ("AD" from BD Biosciences).

The yeast 2-hybrid clones were generated using
the primers designed based on release 1 and 2.
The yeast 2-hybrid Primer File is available to download and should
be used as reference only. It is our understanding that Curagen only
kept track of the gene identity by sequencing once the clones were
generated; not based on the gene intended to be amplified by the
primers listed.

Drosophila Species ESTs/cDNAs

The Drosophila Species Collections comprise ESTs/cDNAs from five different
species libraries generated by AgenCourt as part of the Drosophila Species
Consortium genome sequencing project. The libraries include:
D. virilis
D. ananassae
D. mojavensis
D. erecta
D. grimshawi

These clones have not been fully characterized and may or may not be full length.
We have received these clones "as is" from the AgenCourt.

Drosophila Species Fosmids

The DGRC houses the fosmids generated in the Drosophila
Species Sequencing Project. If you have an interest in obtaining fosmid
clones for D. virilis, D. ananassae, D. mojavensis, D. erecta, or D. grimshawi,
please contact dgrc@cgb.indiana.edu
for more information.

Species Clone Blast & Search

To search the Drosophila species cDNA/EST collections that we have, you will need the TRACE NAME of the species clone.

To find a trace name and to determine whether the DGRC has a species clone for your gene of interest:

Either cut and paste your starting sequence or download the sequence from a file (you can start with a D.m. homolog or similar sequence). Your starting sequence should be as large as possible.

Choose the Drosophila species database you want to query (under any given species you will have at least two options - you need to select EST rather than WGA after the species name).

Then click BLAST.

When you get your results back you have two options:

You can search the DGRC catalog below. Copy the Trace Name (the number in the second column) and paste it into the DGRC cDNA Collection Search box. Make sure you copy and paste the number in the second column, NOT the blue highlighted number. If the DGRC has the clone it should appear in the search results.

If you wish to view more information on this clone, in the trace archive click on the record you wish to look at (the blue highlighted numbers in the left hand column). This will open up a NCBI trace archive for this sequence. Once open, select "Info" under RETRIEVE and then click on "Show".

If you experience any problems or are uncertain as to whether you did the BLAST and searches correctly, please contact Kris at the DGRC (dgrc@cgb.indiana.edu).

Important search tip: The trace archives only contain sequence from the ends of each clone. To maximize your chances of a Blast hit, use the entire predicted coding region of the D.m. homolog.

ECD Collection

The extracellular domain (ECD) collection consists of a set of 202
extracellular domains of Drosophila proteins composed of the
immunoglobulin superfamily (IgSF), fibronectin type III (FnIII), and
leucine-rich repeat (LRR) families. They were each individually
cloned into two complementary bait and prey vectors - to create a
library of 404 clones - that permits expression and secretion from
Drosophila cell lines. See
Ozkan et al., 2003 for more information.

FlyBi ORFeome Collection

The FlyBi ORFeome Collection contains 10,271 open reading frames
(ORFs) from D. melanogaster, cloned in the pDONR223 Gateway
vector. These represent 2/3 of the proteome. Visit FlyBi
at HMS for more information.

Human ORF Collection

The Human ORF Collection contains 365 ORF cDNAs in pUASgHA.attB for
Drosophila transgenesis (Drs. Travis Johnson and Hugo Bellen,
unpublished). This is a pilot collection - an expanded version is in
progress.

Tagged Transcription Factor BAC Collection

The Tagged Transcription Factor BAC Collection contains 650 clones
in attB-BAC for Drosophila transgenics (Dr. Kevin White,
unpublished). These are BAC clones containing Drosophila transcription
factors in which recombineering was utilized to add an epitope tag to
the carboxy end of the open reading frame. The transcription factor is
under the control of its endogenous promoter sequences and the BACs
contain an attB site for high efficiency integration into the
Drosophila genome.

Clones

The DGRC has assembled a large (over 1,000,000 and expanding) inventory
of DNA clones through the generosity of individual community members,
the BDGP, and the CuraGen Corporation. The collection includes
transformation vectors, cDNA clones, and the CuraGen yeast two-hybrid
collection. Whenever possible, we will distribute DNAs as spots
dried onto FTA
filter papers (Whatman). We do not have the resources to
distribute ALL collections as complete sets. If there is sufficient
demand, some collections may be offered as a Bulk Collections.

Searching for Clones

You can enter the ID for your clone or associated gene in the
product search field above. If you have multiple clone IDs, you may
paste them into the batch query field below. If you are looking for
clones in a particular collection, use the Collections menu to the
left for any additional tips on finding clones in that collection.

Clone Batch Query

Use this field to retrieve multiple clones at once. This form only
accepts clone IDs, to search for clones by gene, you must use the
product search above.

Citing the DGRC

When publishing experiments using materials obtained from the DGRC
please cite the Drosophila Genomics Resource Center, supported by NIH
grant 2P40OD010949, in the acknowledgments. Your cooperation helps us
when we need to renew our grant.